RNA STRAND v2.0 - The RNA secondary STRucture and statistical ANalysis Database

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General features for molecule PDB_00950
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Format:
Molecule ID [?]:PDB_00950
Molecule name [?]:STRUCTURE OF HIV-1(LAI) GENOMIC RNA DIS
Source [?]:RCSB Protein Data Bank
Source ID [?]:2B8R
Reference [?]:E.ENNIFAR,P.WALTER,B.EHRESMANN,C.EHRESMANN,P.DUMAS. CRYSTAL STRUCTURES OF COAXIALLY STACKED KISSING COMPLEXES OF THE HIV-1 RNA DIMERIZATION INITIATION SITE. NAT.STRUCT.BIOL. V. 8 1064 2001 ASTM NSBIEW US ISSN 1072-8368
Type [?]:Synthetic RNA

[?]     PS figure     PDF figure
Figure from original source
Organism [?]:SYNTHETIC
Validated by NMR or X-Ray [?]:Yes
Method for secondary structure determination [?]:X-RAY, RESOLUTION 2.60 ANGSTROMS; ran through RNAview
Number of molecules [?]:2
Length [?]:46
Fragments used [?]:No
Duplicated sequence [?]:Molecules in the database with the same sequence: PDB_00112, PDB_00817, PDB_01186, PDB_01188, PDB_01189
Number of domains [?]:1
Number of unpaired bases [?]:6
Number of paired bases [?]:40

Click on any header below for additional features.

Stem features


Hairpin loop features

Number of hairpin loops [?]:0
Maximum number of free bases in hairpin loops [?]:N/A
Average number of free bases in hairpin loops [?]:N/A
Minimum number of free bases in hairpin loop [?]:N/A

Bulge loop features
Number of bulge loops [?]:0
Maximum number of free bases in bulge loops [?]:N/A
Average number of free bases in bulge loops [?]:N/A
Minimum number of free bases in bulge loop [?]:N/A

Internal loop features

Multi-loop features

Non-canonical base pairs features
Total number of non-canonical base pairs [?]: 0

Pseudoknot features
Number of pseudoknots [?]:1
Number of bands:3
Number of base pairs in bands:20
Maximum band length:7
Average band length:6.67
Minimum band length:6
Maximum number of bands per pseudoknot:3
Average number of bands per pseudoknot:3
Minimum number of bands per pseudoknot:3
Maximum number of un-bands:0
Average number of un-bands:0
Minimum number of un-bands:0
Maximum number of in-bands:0
Average number of in-bands:0
Minimum number of in-bands:0
Maximum number of unpaired bases:6
Average number of unpaired bases:6
Minimum number of unpaired bases:6
Several ways to remove minimum number of base pairs, per molecule:No
Minimum number of base pairs to remove, per molecule:6
Maximum number of base pairs to remove, per pseudoknot:6
Average number of base pairs to remove, per pseudoknot:6
Minimum number of base pairs to remove, per pseudoknot:6
Minimum number of bands to remove, per molecule:1
Maximum number of bands to remove, per pseudoknot:1
Average number of bands to remove, per pseudoknot:1
Minimum number of bands to remove, per pseudoknot:1



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